Fitting

Fitting
1

Details: Protocol: Rigid body using Fit-in-Map. A trimer of the crystal structure of PNPase was created using COOT and used for fitting.

Fitting
2

Initial
atomic model: 1YVP

Used
chains:
B, E, F, H

Fitting
software: Chimera

Fitting
protocol: rigid body

Target
criteria: Cross-correlation coefficient

Refinement
space: REAL

Details: Protocol: Rigid body using Fit-in-Map. Combined with the double-stranded portion of the misfolded substrate RNA from PDB 2I91.

Fitting
3

Initial
atomic model: 2I91

Used
chains:
C, D

Fitting
software: Chimera

Fitting
protocol: rigid body

Target
criteria: Cross-correlation coefficient

Refinement
space: REAL

Details: Protocol: Rigid body using Fit-in-Map. The double-stranded portion of the misfolded substrate RNA from this structure was combined with PDB 1YVP to create a model of Rsr bound by Y RNA and a full substrate RNA with single-stranded tail.